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NCBI: 03-AUG-2016

Summary[edit source | edit]

  • organism: Staphylococcus aureus NCTC8325
  • locus tag: SAOUHSC_00545
  • pan locus tag?: SAUPAN002336000
  • symbol: SAOUHSC_00545
  • pan gene symbol?: sdrD
  • synonym:
  • product: fibrinogen-binding protein SdrD

Genome View[edit source | edit]

Gene[edit source | edit]

General[edit source | edit]

  • type: CDS
  • locus tag: SAOUHSC_00545
  • symbol: SAOUHSC_00545
  • product: fibrinogen-binding protein SdrD
  • replicon: chromosome
  • strand: +
  • coordinates: 551105..555154
  • length: 4050
  • essential: no DEG other strains

Accession numbers[edit source | edit]

Phenotype[edit source | edit]

  • Share your knowledge and add information here. [edit]

DNA sequence[edit source | edit]

  • 1
    61
    121
    181
    241
    301
    361
    421
    481
    541
    601
    661
    721
    781
    841
    901
    961
    1021
    1081
    1141
    1201
    1261
    1321
    1381
    1441
    1501
    1561
    1621
    1681
    1741
    1801
    1861
    1921
    1981
    2041
    2101
    2161
    2221
    2281
    2341
    2401
    2461
    2521
    2581
    2641
    2701
    2761
    2821
    2881
    2941
    3001
    3061
    3121
    3181
    3241
    3301
    3361
    3421
    3481
    3541
    3601
    3661
    3721
    3781
    3841
    3901
    3961
    4021
    ATGCTAAACAGAGAAAATAAAACGGCAATAACAAGGAAAGGCATGGTATCCAATCGATTA
    AATAAATTTTCGATTAGAAAGTACACAGTGGGAACAGCATCAATTTTAGTAGGTACAACA
    TTAATTTTTGGTCTGGGGAACCAAGAAGCAAAGGCTGCAGAAAGTACTAATAAAGAATTG
    AACGAAGCGACAACTTCAGCAAGTGATAATCAATCGAGTGATAAAGTTGATATGCAGCAA
    CTAAATCAAGAAGACAATACTAAAAATGATAATCAAAAAGAAATGGTATCATCTCAAGGT
    AATGAAACGACTTCAAATGGGAATAAATTAATAGAAAAAGAAAGTGTACAATCTACCACT
    GGAAATAAAGTTGAAGTTTCAACTGCCAAATCAGATGAGCAAGCTTCACCAAAATCTACG
    AATGAAGATTTAAACACTAAACAAACTATAAGTAATCAAGAAGCGTTACAACCTGATTTG
    CAAGAGAATAAATCAGTGGTAAATGTTCAACCAACTAATGAGGAAAACAAAAAGGTAGAT
    GCCAAAACTGAATCAACTACATTAAATGTTAAAAGTGATGCTATCAAGAGTAATGATGAA
    ACTCTTGTTGATAACAATAGTAATTCAAATAATGAAAATAATGCAGATATCATTTTGCCA
    AAAAGTACAGCACCTAAACGTTTGAATACAAGAATGCGTATAGCAGCAGTACAGCCATCA
    TCAACAGAGGCTAAAAATGTTAATGATTTAATCACATCAAATACAACATTAACTGTCGTT
    GATGCAGATAAAAACAATAAAATCGTACCAGCCCAAGATTATTTATCATTAAAATCACAA
    ATTACAGTTGATGACAAAGTTAAATCAGGTGATTATTTCACAATTAAATACTCAGATACA
    GTACAAGTATATGGATTGAATCCGGAAGATATTAAAAATATTGGTGATATTAAAGATCCA
    AATAATGGTGAAACAATTGCGACTGCAAAACATGATACTGCAAATAATTTAATTACATAT
    ACATTTACAGATTATGTTGATCGATTTAATTCTGTACAAATGGGAATTAATTATTCAATT
    TATATGGATGCTGATACAATTCCTGTTAGTAAAAACGATGTTGAGTTTAATGTTACGATA
    GGTAATACTACAACAAAAACAACTGCTAACATTCAATATCCAGATTATGTTGTAAATGAG
    AAAAATTCAATTGGATCAGCGTTCACTGAAACAGTTTCACATGTTGGAAATAAAGAAAAT
    CCAGGGTACTATAAACAAACGATTTATGTAAATCCATCGGAAAATTCTTTAACAAATGCC
    AAACTAAAAGTTCAAGCTTACCACTCAAGTTATCCTAATAATATCGGGCAAATAAATAAA
    GATGTAACAGATATAAAAATATATCAAGTTCCTAAAGGTTATACATTAAATAAAGGATAC
    GATGTGAATACTAAAGAGCTTACAGATGTAACAAATCAATACTTGCAGAAAATTACATAT
    GGCGACAACAATAGCGCTGTTATTGATTTTGGAAATGCAGATTCTGCTTATGTTGTAATG
    GTTAATACAAAATTCCAATATACAAATAGCGAAAGCCCAACACTTGTTCAAATGGCTACT
    TTATCTTCAACAGGTAATAAATCCGTTTCTACTGGCAATGCTTTAGGATTTACTAATAAC
    CAAAGTGGCGGAGCTGGTCAAGAAGTATATAAAATTGGTAACTACGTATGGGAAGATACT
    AATAAAAACGGTGTTCAAGAATTAGGAGAAAAAGGCGTTGGCAATGTAACTGTAACTGTA
    TTTGATAATAATACAAATACAAAAGTAGGAGAAGCAGTTACTAAAGAAGATGGGTCATAC
    TTGATTCCAAACTTACCTAATGGAGATTACCGTGTAGAATTTTCAAACTTACCAAAAGGT
    TATGAAGTAACCCCTTCAAAACAAGGTAATAACGAAGAATTAGATTCAAACGGCTTATCT
    TCAGTTATTACAGTTAATGGCAAAGATAACTTATCTGCAGACTTAGGTATTTACAAACCT
    AAATACAACTTAGGTGACTATGTCTGGGAAGATACAAATAAAAATGGTATCCAAGACCAA
    GATGAAAAAGGTATATCTGGCGTAACGGTAACATTAAAAGATGAAAACGGTAACGTGTTA
    AAAACAGTTACAACAGACGCTGATGGCAAATATAAATTTACTGATTTAGATAATGGTAAT
    TATAAAGTTGAATTTACTACACCAGAAGGCTATACACCGACTACAGTAACATCTGGTAGC
    GACATTGAAAAAGACTCTAATGGTTTAACAACAACAGGTGTTATTAATGGTGCTGATAAC
    ATGACATTAGATAGTGGATTCTACAAAACACCAAAATATAATTTAGGTAATTATGTATGG
    GAAGATACAAATAAAGATGGTAAGCAGGATTCAACTGAAAAAGGTATTTCAGGCGTAACA
    GTTACATTGAAAAATGAAAACGGTGAAGTTTTACAAACAACTAAAACAGATAAAGATGGT
    AAATATCAATTTACTGGATTAGAAAATGGAACTTATAAAGTTGAATTCGAAACACCATCA
    GGTTACACACCAACACAAGTAGGTTCAGGAACTGATGAAGGTATAGATTCAAATGGTACA
    TCAACAACAGGTGTCATTAAAGATAAAGATAACGATACTATTGACTCTGGTTTCTACAAA
    CCGACTTACAACTTAGGTGACTATGTATGGGAAGATACAAATAAAAACGGTGTTCAAGAT
    AAAGATGAAAAGGGCATTTCAGGTGTAACAGTTACGTTAAAAGATGAAAACGACAAAGTT
    TTAAAAACAGTTACAACAGATGAAAATGGTAAATATCAATTCACTGATTTAAACAATGGA
    ACTTATAAAGTTGAATTCGAGACACCATCAGGTTATACACCAACTTCAGTAACTTCTGGA
    AATGATACTGAAAAAGATTCTAATGGTTTAACAACAACAGGTGTCATTAAAGATGCAGAT
    AACATGACATTAGACAGTGGTTTCTATAAAACACCAAAATATAGTTTAGGTGATTATGTT
    TGGTACGACAGTAATAAAGACGGCAAACAAGATTCAACTGAAAAAGGTATCAAAGATGTT
    AAAGTTACTTTATTAAATGAAAAAGGCGAAGTAATTGGAACAACTAAAACAGATGAAAAT
    GGTAAATACTGCTTTGATAATTTAGATAGCGGTAAATACAAAGTTATTTTTGAAAAGCCT
    GCTGGCTTAACACAAACAGTTACAAATACAACTGAAGATGATAAAGATGCAGATGGTGGC
    GAAGTTGACGTAACAATTACGGATCATGATGATTTCACACTTGATAACGGATACTTCGAA
    GAAGATACATCAGACAGCGATTCAGACTCAGATAGTGACTCAGACAGCGACTCAGACTCA
    GACAGCGACTCAGACTCAGACAGTGATTCAGATTCAGACAGCGACTCAGATTCAGATAGC
    GACTCAGATTCGGACAGCGATTCAGACTCAGATAGCGACTCAGATTCAGATAGCGATTCA
    GACTCAGACAGCGACTCAGATTCAGATAGCGATTCGGACTCAGACAGCGATTCAGACTCA
    GATAGCGACTCAGACTCAGACAGCGACTCAGATTCAGATAGCGATTCGGACTCAGATAGC
    GACTCAGATTCAGACAGCGATTCAGACTCAGATAGCGACTCAGATTCAGACAGCGATTCA
    GACTCAGATAGCGACTCAGACTCAGACAGTGATTCAGATTCAGACAGCGACTCAGACTCA
    GATAGCGACTCAGATTCGGACAGCGACTCAGACTCTGATAGCGACTCAGACTCAGACAGT
    GATTCAGACAGCGATTCAGACTCGGATGCAGGAAAACATACACCTGTTAAACCAATGAGT
    ACTACTAAAGACCATCACAATAAAGCAAAAGCATTACCAGAAACAGGTAGTGAAAATAAC
    GGCTCAAATAACGCAACGTTATTTGGTGGATTATTTGCAGCATTAGGTTCATTATTGTTA
    TTCGGTCGTCGCAAAAAACAAAACAAATAA
    60
    120
    180
    240
    300
    360
    420
    480
    540
    600
    660
    720
    780
    840
    900
    960
    1020
    1080
    1140
    1200
    1260
    1320
    1380
    1440
    1500
    1560
    1620
    1680
    1740
    1800
    1860
    1920
    1980
    2040
    2100
    2160
    2220
    2280
    2340
    2400
    2460
    2520
    2580
    2640
    2700
    2760
    2820
    2880
    2940
    3000
    3060
    3120
    3180
    3240
    3300
    3360
    3420
    3480
    3540
    3600
    3660
    3720
    3780
    3840
    3900
    3960
    4020
    4050

Protein[edit source | edit]

General[edit source | edit]

  • locus tag: SAOUHSC_00545
  • symbol: SAOUHSC_00545
  • description: fibrinogen-binding protein SdrD
  • length: 1349
  • theoretical pI: 3.9647
  • theoretical MW: 146086
  • GRAVY: -1.00586

Function[edit source | edit]

  • reaction:
  • TIGRFAM:
    gram-positive signal peptide, YSIRK family (TIGR01168; HMM-score: 49)
    MetabolismEnergy metabolismOtherprotocatechuate 3,4-dioxygenase, beta subunit (TIGR02422; EC 1.13.11.3; HMM-score: 17.5)
    Cell structureCell envelopeOtherLPXTG cell wall anchor domain (TIGR01167; HMM-score: 16.6)
  • TheSEED:  
    Virulence, Disease and DefenseAdhesionAdhesins in Staphylococcus Adhesin of unknown specificity SdrD 
  • PFAM:
    Transthyretin (CL0287) SdrD_B; SdrD B-like domain (PF17210; HMM-score: 468.1)
    CarboxypepD_reg; Carboxypeptidase regulatory-like domain (PF13620; HMM-score: 174.5)
    Adhesin (CL0204) SdrG_C_C; C-terminus of bacterial fibrinogen-binding adhesin (PF10425; HMM-score: 127.8)
    E-set (CL0159) MG1; Alpha-2-macroglobulin MG1 domain (PF11974; HMM-score: 75.7)
    Transthyretin (CL0287) CarbopepD_reg_2; CarboxypepD_reg-like domain (PF13715; HMM-score: 67.4)
    MetallophosN; N terminal of Calcineurin-like phosphoesterase (PF16371; HMM-score: 60.7)
    DUF2012; Protein of unknown function (DUF2012) (PF09430; HMM-score: 58.6)
    no clan definedYSIRK_signal; YSIRK type signal peptide (PF04650; HMM-score: 45.3)
    Gram_pos_anchor; LPXTG cell wall anchor motif (PF00746; HMM-score: 44.1)
    GOLD-like (CL0521) EMP24_GP25L; emp24/gp25L/p24 family/GOLD (PF01105; HMM-score: 37.1)
    Transthyretin (CL0287) DUF1416; Protein of unknown function (DUF1416) (PF07210; HMM-score: 34.7)
    E-set (CL0159) DUF3244; Domain of unknown function (DUF3244) (PF11589; HMM-score: 30.7)
    Transthyretin (CL0287) TTR-52; Transthyretin-like family (PF01060; HMM-score: 25.1)
    Dioxygenase_C; Dioxygenase (PF00775; HMM-score: 24.6)
    DUF2606; Protein of unknown function (DUF2606) (PF10794; HMM-score: 14.7)
    bBprotInhib (CL0354) Inh; Protease inhibitor Inh (PF02974; HMM-score: 12.8)
    HSP20 (CL0190) HSP20; Hsp20/alpha crystallin family (PF00011; HMM-score: 12.6)
    Transthyretin (CL0287) fn3_3; Polysaccharide lyase family 4, domain II (PF14686; HMM-score: 7.9)

Structure, modifications & interactions[edit source | edit]

  • domains:
  • modifications:
  • cofactors:
  • effectors:
  • protein partners:

Localization[edit source | edit]

  • PSORTb: Cellwall
    • Cytoplasmic Score: 0
    • Cytoplasmic Membrane Score: 0
    • Cellwall Score: 10
    • Extracellular Score: 0
    • Internal Helix: 1
  • LocateP: LPxTG Cell-wall anchored
    • Prediction by SwissProt Classification: Cell Wall
    • Pathway Prediction: Sec-(SPI)
    • Intracellular Possibility: 0
    • Signal Peptide Possibility: 1
    • N-terminally Anchored Score: -2
    • Predicted Cleavage Site: found LPxTG motif :LPETG
  • SignalP: Signal peptide length 53 aa
    • Ymax: 0.714
    • Ymax_pos: 53
    • Cmax: 0.782
    • Cmax_pos: 53
    • Smax: 0.785
    • Smax_pos: 49
    • Smean: 0.451
    • D: 0.611
  • predicted transmembrane helices (TMHMM): 1

Accession numbers[edit source | edit]

Protein sequence[edit source | edit]

  • MLNRENKTAITRKGMVSNRLNKFSIRKYTVGTASILVGTTLIFGLGNQEAKAAESTNKELNEATTSASDNQSSDKVDMQQLNQEDNTKNDNQKEMVSSQGNETTSNGNKLIEKESVQSTTGNKVEVSTAKSDEQASPKSTNEDLNTKQTISNQEALQPDLQENKSVVNVQPTNEENKKVDAKTESTTLNVKSDAIKSNDETLVDNNSNSNNENNADIILPKSTAPKRLNTRMRIAAVQPSSTEAKNVNDLITSNTTLTVVDADKNNKIVPAQDYLSLKSQITVDDKVKSGDYFTIKYSDTVQVYGLNPEDIKNIGDIKDPNNGETIATAKHDTANNLITYTFTDYVDRFNSVQMGINYSIYMDADTIPVSKNDVEFNVTIGNTTTKTTANIQYPDYVVNEKNSIGSAFTETVSHVGNKENPGYYKQTIYVNPSENSLTNAKLKVQAYHSSYPNNIGQINKDVTDIKIYQVPKGYTLNKGYDVNTKELTDVTNQYLQKITYGDNNSAVIDFGNADSAYVVMVNTKFQYTNSESPTLVQMATLSSTGNKSVSTGNALGFTNNQSGGAGQEVYKIGNYVWEDTNKNGVQELGEKGVGNVTVTVFDNNTNTKVGEAVTKEDGSYLIPNLPNGDYRVEFSNLPKGYEVTPSKQGNNEELDSNGLSSVITVNGKDNLSADLGIYKPKYNLGDYVWEDTNKNGIQDQDEKGISGVTVTLKDENGNVLKTVTTDADGKYKFTDLDNGNYKVEFTTPEGYTPTTVTSGSDIEKDSNGLTTTGVINGADNMTLDSGFYKTPKYNLGNYVWEDTNKDGKQDSTEKGISGVTVTLKNENGEVLQTTKTDKDGKYQFTGLENGTYKVEFETPSGYTPTQVGSGTDEGIDSNGTSTTGVIKDKDNDTIDSGFYKPTYNLGDYVWEDTNKNGVQDKDEKGISGVTVTLKDENDKVLKTVTTDENGKYQFTDLNNGTYKVEFETPSGYTPTSVTSGNDTEKDSNGLTTTGVIKDADNMTLDSGFYKTPKYSLGDYVWYDSNKDGKQDSTEKGIKDVKVTLLNEKGEVIGTTKTDENGKYCFDNLDSGKYKVIFEKPAGLTQTVTNTTEDDKDADGGEVDVTITDHDDFTLDNGYFEEDTSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDAGKHTPVKPMSTTKDHHNKAKALPETGSENNGSNNATLFGGLFAALGSLLLFGRRKKQNK

Experimental data[edit source | edit]

Expression & Regulation[edit source | edit]

Operon[edit source | edit]

Regulation[edit source | edit]

  • sigma factor:
  • regulator:

Transcription pattern[edit source | edit]

Protein synthesis (provided by Aureolib)[edit source | edit]

Protein stability[edit source | edit]

  • half-life: no data available

Biological Material[edit source | edit]

Mutants[edit source | edit]

Expression vector[edit source | edit]

lacZ fusion[edit source | edit]

GFP fusion[edit source | edit]

two-hybrid system[edit source | edit]

FLAG-tag construct[edit source | edit]

Antibody[edit source | edit]

Other Information[edit source | edit]

You are kindly invited to share additional interesting facts.

Literature[edit source | edit]

References[edit source | edit]

  1. Stephan Michalik, Maren Depke, Annette Murr, Manuela Gesell Salazar, Ulrike Kusebauch, Zhi Sun, Tanja C Meyer, Kristin Surmann, Henrike Pförtner, Petra Hildebrandt, Stefan Weiss, Laura Marcela Palma Medina, Melanie Gutjahr, Elke Hammer, Dörte Becher, Thomas Pribyl, Sven Hammerschmidt, Eric W Deutsch, Samuel L Bader, Michael Hecker, Robert L Moritz, Ulrike Mäder, Uwe Völker, Frank Schmidt
    A global Staphylococcus aureus proteome resource applied to the in vivo characterization of host-pathogen interactions.
    Sci Rep: 2017, 7(1);9718
    [PubMed:28887440] [WorldCat.org] [DOI] (I e)
  2. Maren Depke, Stephan Michalik, Alexander Rabe, Kristin Surmann, Lars Brinkmann, Nico Jehmlich, Jörg Bernhardt, Michael Hecker, Bernd Wollscheid, Zhi Sun, Robert L Moritz, Uwe Völker, Frank Schmidt
    A peptide resource for the analysis of Staphylococcus aureus in host-pathogen interaction studies.
    Proteomics: 2015, 15(21);3648-3661
    [PubMed:26224020] [WorldCat.org] [DOI] (I p)
  3. Ulrike Mäder, Pierre Nicolas, Maren Depke, Jan Pané-Farré, Michel Debarbouille, Magdalena M van der Kooi-Pol, Cyprien Guérin, Sandra Dérozier, Aurelia Hiron, Hanne Jarmer, Aurélie Leduc, Stephan Michalik, Ewoud Reilman, Marc Schaffer, Frank Schmidt, Philippe Bessières, Philippe Noirot, Michael Hecker, Tarek Msadek, Uwe Völker, Jan Maarten van Dijl
    Staphylococcus aureus Transcriptome Architecture: From Laboratory to Infection-Mimicking Conditions.
    PLoS Genet.: 2016, 12(4);e1005962
    [PubMed:27035918] [WorldCat.org] [DOI] (I e)

Relevant publications[edit source | edit]

T J Foster, M Höök
Surface protein adhesins of Staphylococcus aureus.
Trends Microbiol.: 1998, 6(12);484-8
[PubMed:10036727] [WorldCat.org] (P p)
Mark J J B Sibbald, Theresa Winter, Magdalena M van der Kooi-Pol, G Buist, E Tsompanidou, Tjibbe Bosma, Tina Schäfer, Knut Ohlsen, Michael Hecker, Haike Antelmann, Susanne Engelmann, Jan Maarten van Dijl
Synthetic effects of secG and secY2 mutations on exoproteome biogenesis in Staphylococcus aureus.
J. Bacteriol.: 2010, 192(14);3788-800
[PubMed:20472795] [WorldCat.org] [DOI] (I p)